RetrogeneDB ID: | retro_mmul_1455 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 2:107550402..107551925(+) | ||
| Located in intron of: | ENSMMUG00000005187 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | LRRFIP1 | ||
| Ensembl ID: | ENSMMUG00000003386 | ||
| Aliases: | LRRFIP1, LRRFIP2 | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mmul_1455
ATGACCAGCCCCGCAGCCGCGCAGAGCCAGGAGATCGACTGTTTGAGACCGGAAGGGCAGAGGCTGGCGGAGGCCCCGCT
CGCGGCAACACTGGCGGCCGGGGCGGAGGCTCGTGAGATCCGCATGAAGGAGCTGGAGCGGCAGCAGAAGGAGGTAGAAG
AGGGACCAGAAAAAGATTTTACTGAGAAGGGGTCTGGTAACACGCCAGGCCTGTCTGCAGCCACGCTGGCCTCTCTGGTT
GGGAGTTGCTCTCAGAGAGGCAGCTGGAGACACCTCCATCTCCATCCACACTAAGGCCTCCATCAGGGAAATAAAGAACT
CTCTAGCAGAAGTTGAAGAGAAATATAAGAAGGCTATGGTTTCCAATGCTCAGCTATACAATGAAAAGACAAACTTCATG
TACCGGGTTGATACCTTGAAAGATACGTTGCTGGAGCTTGAAGAACAGCTGACTGAATCTAGGCAGCAGTACAAAGAGAA
AAAGAATTTGAAAGGGAAAAACATGCCCACAGTATACTGCAATTTCAGTTTGCTGAAGTCAAGGAGGCCCTGAAGCAAAG
AGAGGAAATGCTCGAGAAACATGGAATAATCCTAAATTCAGAAATAGCTACCAATGGAGAGACTTCCGACACTCTCAATA
ATGTTGGATACCAAGGTCCTACCAAGATGACGAAAGAAGGGTTAAATGCCCTCAAGTCGACAGGGGATGGGACCCTAGGA
AGAGCCAGTGAAGTGGAGGTGAAAAATGAAATCGTGGCGAATGTGGGGAAAAGAGAAATCTTGAACAATACTGAGAAAGA
ATAACACACAGAGGACATAGTGAAGGACTGTGTGGATATAGAGGTATTCCCTGCTGGTGAGAATACCGAGGACCAGAAAT
CTTCTGAAGACACTGCCCCATTCCTAGGAACCTTAGCAGGAGCTACCTATGAGGAAGAGGTTCAAAGCCAAATTCTTGAG
AGCGTTTCTCTCCCTGAAAACACAGCACAGGTTGAGTCAAATGAGGTCATGGGTGCACCAGATGACGGGACCAGAACTCC
CCTTGAGCCATCGAACTGTTGGAGTGACTTAGATGGTGGGAGCCACATAGAGAATGTGGGAAAGTCAACGGTGACTCAGG
TTGGAGAGCAGGCAGGCACAGTGGCCTCGTGCCCTTTAAAGCATAGTGATGACACAGTTTATCATGATGACAGATGTACG
GTAGAGGTCCCCCAGAGTTAGAGACAAGCACAGGGCATAGTTTAGATAAAGAATTCACCAACCAGGAAGTAGCGGAGCCC
AAGGAGTTTCCAGTGCATAGTACAGAAGTAGGTAGGGATCACAACGAAGAAGAGGGTAAAGAAACAGGATTAAGGGATGA
GAAACCAATCAAGACAGAAGTTCCTGGCTCTCCAGCAGGAACTGAGAGCAATGGTCAGGAAGCGACAGGTCCAAGTACAG
TAGACACTCAAAGTAAACCCTTAGATATGAAAGAGTCTGACGAAGAAAAGACTGACCAAAAGGGAGACGCATTGGACTCA
TCG
ORF - retro_mmul_1455 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.55 % |
| Parental protein coverage: | 67.69 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | MTSPAAAQSREIDCLSPEAQRLAEARLAAKRAARAEAREIRMKELERQQKEVEDRPEKDFTEKGSRNMPG |
| MTSPAAAQS.EIDCL.PE.QRLAEA.LAA..AA.AEAREIRMKELERQQKEVE..PEKDFTEKGS.N.PG | |
| Retrocopy | MTSPAAAQSQEIDCLRPEGQRLAEAPLAATLAAGAEAREIRMKELERQQKEVEEGPEKDFTEKGSGNTPG |
| Parental | LSAATLASLGGTSSRRGS-GDTSISIDTEASIREIKDSLAEVEEKYKKAMVSNAQLDNEKTNFMYQVDTL |
| LSAATLASL.G..S.RGS.GDTSISI.T.ASIREIK.SLAEVEEKYKKAMVSNAQL.NEKTNFMY.VDTL | |
| Retrocopy | LSAATLASLVGSCSQRGS>GDTSISIHTKASIREIKNSLAEVEEKYKKAMVSNAQLYNEKTNFMYRVDTL |
| Parental | KDMLLELEEQLAESRRQYE-EKNKEFEREKHAHSILQFQFAEVKEALKEREEMLEKHGIILNSEIATNGE |
| KD.LLEL.E......RQ......KEFEREKHAHSILQFQFAEVKEALK.REEMLEKHGIILNSEIATNGE | |
| Retrocopy | KDTLLEL-EEQLTESRQQY<QREKEFEREKHAHSILQFQFAEVKEALKQREEMLEKHGIILNSEIATNGE |
| Parental | TSDTLNNVGYQGPTKMTKAELNALKSTGDGTLGRASEVEVKNEIVANVGKREILHNTEKEQHTEDTVKDC |
| TSDTLNNVGYQGPTKMTK..LNALKSTGDGTLGRASEVEVKNEIVANVGKREIL.NTEKE.HTED.VKDC | |
| Retrocopy | TSDTLNNVGYQGPTKMTKEGLNALKSTGDGTLGRASEVEVKNEIVANVGKREILNNTEKE*HTEDIVKDC |
| Parental | VDIEVFPAGENTEDQKSSEDTAPFLGTLAGATYEEQVQNQILESTSLPENTAQAESDEVMGVPDDRTRTP |
| VDIEVFPAGENTEDQKSSEDTAPFLGTLAGATYEE.VQ.QILES.SLPENTAQ.ES.EVMG.PDD.TRTP | |
| Retrocopy | VDIEVFPAGENTEDQKSSEDTAPFLGTLAGATYEEEVQSQILESVSLPENTAQVESNEVMGAPDDGTRTP |
| Parental | LEPSSCWNDLDGGNHTGNVGEAAATQVGEQAGTVASCPLGHSDDTVYHDDKCTVEVPQ-ELETSTGHSLE |
| LEPS.CW.DLDGG.H..NVG....TQVGEQAGTVASCPL.HSDDTVYHDD.CTVEVPQ.ELETSTGHSL. | |
| Retrocopy | LEPSNCWSDLDGGSHIENVGKSTVTQVGEQAGTVASCPLKHSDDTVYHDDRCTVEVPQ<ELETSTGHSLD |
| Parental | KEFTNQEAAEPKEVPVQSTEVGRDHNEEEGEETVLRDEKPIKTEVPGSPAGTENNGQEATGPSTVDTQSE |
| KEFTNQE.AEPKE.PV.STEVGRDHNEEEG.ET.LRDEKPIKTEVPGSPAGTE.NGQEATGPSTVDTQS. | |
| Retrocopy | KEFTNQEVAEPKEFPVHSTEVGRDHNEEEGKETGLRDEKPIKTEVPGSPAGTESNGQEATGPSTVDTQSK |
| Parental | SLDMKEPEEEKNDQQGEALDSS |
| .LDMKE..EEK.DQ.G.ALDSS | |
| Retrocopy | PLDMKESDEEKTDQKGDALDSS |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP007412_brain | 2 .69 RPM | 80 .23 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .71 RPM | 52 .91 RPM |
| SRP007412_cerebellum | 2 .45 RPM | 10 .27 RPM |
| SRP007412_heart | 2 .30 RPM | 113 .71 RPM |
| SRP007412_kidney | 3 .87 RPM | 46 .71 RPM |
| SRP007412_liver | 0 .59 RPM | 25 .61 RPM |
| SRP007412_testis | 2 .07 RPM | 5 .88 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1455 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1455 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1455 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_2887 |
| Gorilla gorilla | retro_ggor_2001 |
Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000124831 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000008411 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000003386 | 1 retrocopy |
retro_mmul_1455 ,
|
| Macaca mulatta | ENSMMUG00000022539 | 1 retrocopy |